make_heatmap: This function takes in a dataframe with the relative amounts,...

In juyeki/MetabR: Functions to assist in the current UCLA Metabolomics Quality Control and Analysis Pipeline.

Description

This function creates an annotated heatmap, allowing visalization of sample Relative amount metabolite values, Norvaline values, Cell Number readings, and the experimental condition that each sample was run under. The 'width' and 'height' parameters allow user to manually set pdf output dimensions. Otherwise, pheatmap::pheatmap calculates the dimensions, but sometimes annotation legends/titles are cut off.

Usage

make_heatmap(matrix = RelA, samples = samples, heat.color = normal, width = 8, height = 5)

Arguments

matrix	A dataframe containing the relative amounts.
samples	A dataframe with information on the samples.
heat.color	The color scheme that is to be used in the heatmap.
to_cluster	Optional parameter (default is TRUE) indicating whether or not the outputted heatmap is to be clustered.
width	Optional parameter to set width dimensions of pdf output plot.
height	Optional parameter to set height dimensions of pdf output plot.

Author(s)

Gerardo Javier, Daniel Tan, Jordan Uyeki

juyeki/MetabR documentation built on Aug. 6, 2020, 3:32 a.m.